miRNA: 3'- aaCAGa--CGuacUCGACGCGCGACa----CU- -5'
miRNA: 3'- aaCAGACgUaCUCGa----CGCGCGaCACU- -5'
miRNA: 3'- aaCAG-ACGUACUcGACGCGCGACaCU- -5'
miRNA: 3'- aaCAGACGuaC---UCGa--CGCGCGA-CACU- -5'
Results 1 - 4 of 4 are showing below:
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| ID | Location | Perfect MFE.* | RefSeq Acc. | strand | Start Position | R_P_ratio# |
P value
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| Predicted miRNA align pattern | |||||||
| 5924 | 3' | -55.5 | NC_001806.1 | + | 84073 | 0.66 | 0.862725 |
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Target: 5'- -aGUCgggGCcccAGCUGCGCGCUGccgcgGAg -3' miRNA: 3'- aaCAGa--CGuacUCGACGCGCGACa----CU- -5' |
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| 5924 | 3' | -55.5 | NC_001806.1 | + | 25708 | 0.68 | 0.784396 |
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Target: 5'- -cGUCUGgAgGAGCgggagGUGCGCgGUGAc -3' miRNA: 3'- aaCAGACgUaCUCGa----CGCGCGaCACU- -5' |
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| 5924 | 3' | -55.5 | NC_001806.1 | + | 37657 | 0.71 | 0.599871 |
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Target: 5'- -gGUCgUGCAUGAcCUGUGCGCUGcGGc -3' miRNA: 3'- aaCAG-ACGUACUcGACGCGCGACaCU- -5' |
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| 5924 | 3' | -55.5 | NC_001806.1 | + | 67206 | 0.72 | 0.578925 |
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Target: 5'- -gGUCUGCcgGccuGGCgggGCGCGCUgGUGGg -3' miRNA: 3'- aaCAGACGuaC---UCGa--CGCGCGA-CACU- -5' |
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Note:
When operating RNAhybrid, the pipeline first calculates the perfect minimum free energy (Perfect mfe *) of a putative miRNA when the entire putative miRNA binds to a perfectly complementary target site, then it calculates the minimum free energy of RNA duplex (mfe of the miRNA/mRNA duplex), abbreviated as Rd_mfe. An alignment for which the Rd_mfe to its correspondent Perfect mfe ratio (R_P_ratio #) is more than 66% is regarded as a positive alignment as described by Krek et al. (21). The P_value is calculated by RNAhybrid.
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